IRcall and IRclassifier: two methods for flexible detection of intron retention events from RNA-Seq data

BMC Genomics

Table 1 Intron Removal Criteria.

$T_{N_{5 s s}}$	>	3
$T_{N_{3 s s}}$	>	3
$T_{N_{c o v e r a g e}}$	>	0:9
$T_{N_{e x o n}}$	>	1
$T_{N_{e x p r e s s i o n}}$	>	10
$T_{N_{_{i n t r o n}}}$	>	1
$C_{N_{_{e x p r e s s i o n}}}$	>	10
$C_{N_{J u n c}}$	>	1
$C_{N_{_{e x o n}}}$	>	1
$\frac{T_{N_{e x p r e s s i o n}}}{C_{N_{_{e x p r e s s i o n}}}}$	<	$l o g_{2} (\frac{3}{2}) or \frac{T_{N_{e x p r e s s i o n}}}{C_{N_{_{e x p r e s s i o n}}}} > l o g_{2} (\frac{2}{3})$

ISSN: 1471-2164